Harry Hochheiser

Associate Professor




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Personal Academic Website

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Pathogens/Diseases of Main Interest/Expertise

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Truelove S, Smith CP, Qin M, Mullany LC, Borchering RK, Lessler J, Shea K, Howerton E, Contamin L, Levander J, Kerr J, Hochheiser H, Kinsey M, Tallaksen K, Wilson S, Shin L, Rainwater-Lovett K, Lemairtre JC, Dent J, Kaminsky J, Lee EC, Perez-Saez J, Hill A, Karlen D, Chinazzi M, Davis JT, Mu K, Xiong X, Pastore Y Piontti A, Vespignani A, Srivastava A, Porebski P, Venkatramanan S, Adiga A, Lewis B, Klahn B, Outten J, Orr M, Harrison G, Hurt B, Chen J, Vullikanti A, Marathe M, Hoops S, Bhattacharya P, Machi D, Chen S, Paul R, Janies D, Thill JC, Galanti M, Yamana TK, Pei S, Shaman JL, Healy JM, Slayton RB, Biggerstaff M, Johansson MA, Runge MC, Viboud C. (2022). Projected resurgence of COVID-19 in the United States in July-December 2021 resulting from the increased transmissibility of the Delta variant and faltering vaccination. eLife, (11)

Reich NG, Lessler J, Funk S, Viboud C, Vespignani A, Tibshirani RJ, Shea K, Schienle M, Runge MC, Rosenfeld R, Ray EL, Niehus R, Johnson HC, Johansson MA, Hochheiser H, Gardner L, Bracher J, Borchering RK, Biggerstaff M. (2022). Collaborative Hubs: Making the Most of Predictive Epidemic Modeling. American journal of public health

Hochheiser H, Jing X, Garcia EA, Ayvaz S, Sahay R, Dumontier M, Banda JM, Beyan O, Brochhausen M, Draper E, Habiel S, Hassanzadeh O, Herrero-Zazo M, Hocum B, Horn J, LeBaron B, Malone DC, Nytrø Ø, Reese T, Romagnoli K, Schneider J, Zhang LY, Boyce RD. (2021). A Minimal Information Model for Potential Drug-Drug Interactions. Frontiers in pharmacology, (11)

Vukmirovic M, Yan X, Gibson KF, Gulati M, Schupp JC, DeIuliis G, Adams TS, Hu B, Mihaljinec A, Woolard TN, Lynn H, Emeagwali N, Herzog EL, Chen ES, Morris A, Leader JK, Zhang Y, Garcia JGN, Maier LA, Collman RG, Drake WP, Becich MJ, Hochheiser H, Wisniewski SR, Benos PV, Moller DR, Prasse A, Koth LL, Kaminski N, . (2021). Transcriptomics of bronchoalveolar lavage cells identifies new molecular endotypes of sarcoidosis. The European respiratory journal

Newman-Griffis D, Lehman JF, Rosé C, Hochheiser H. (2021). Translational NLP: A New Paradigm and General Principles for Natural Language Processing Research. Proceedings of the conference. Association for Computational Linguistics. North American Chapter. Meeting, (2021)

Newman-Griffis D, Sivaraman V, Perer A, Fosler-Lussier E, Hochheiser H. (2021). TextEssence: A Tool for Interactive Analysis of Semantic Shifts Between Corpora. Proceedings of the conference. Association for Computational Linguistics. North American Chapter. Meeting, (2021)

Visweswaran S, King AJ, Tajgardoon M, Calzoni L, Clermont G, Hochheiser H, Cooper GF. (2021). Evaluation of eye tracking for a decision support application. JAMIA open, 4(3)

King AJ, Calzoni L, Tajgardoon M, Cooper GF, Clermont G, Hochheiser H, Visweswaran S. (2021). A simple electronic medical record system designed for research. JAMIA open, 4(3)

Chu JH, Zang W, Vukmirovic M, Yan X, Adams T, DeIuliis G, Hu B, Mihaljinec A, Schupp JC, Becich MJ, Hochheiser H, Gibson KF, Chen ES, Morris A, Leader JK, Wisniewski SR, Zhang Y, Sciurba FC, Collman RG, Sandhaus R, Herzog EL, Patterson KC, Sauler M, Strange C, Kaminski N, . (2020). Gene coexpression networks reveal novel molecular endotypes in alpha-1 antitrypsin deficiency. Thorax

Barda AJ, Horvat CM, Hochheiser H. (2020). A qualitative research framework for the design of user-centered displays of explanations for machine learning model predictions in healthcare. BMC medical informatics and decision making, 20(1)

King AJ, Cooper GF, Clermont G, Hochheiser H, Hauskrecht M, Sittig DF, Visweswaran S. (2020). Leveraging Eye Tracking to Prioritize Relevant Medical Record Data: Comparative Machine Learning Study. Journal of medical Internet research, 22(4)

Tajgardoon M, Cooper GF, King AJ, Clermont G, Hochheiser H, Hauskrecht M, Sittig DF, Visweswaran S. (2020). Modeling physician variability to prioritize relevant medical record information. JAMIA open, 3(4)

Yuan Z, Finan S, Warner J, Savova G, Hochheiser H. (2020). Interactive Exploration of Longitudinal Cancer Patient Histories Extracted From Clinical Text. JCO clinical cancer informatics, (4)

Hochheiser H, Valdez RS. (2020). Human-Computer Interaction, Ethics, and Biomedical Informatics. Yearbook of medical informatics, 29(1)

Calzoni L, Clermont G, Cooper GF, Visweswaran S, Hochheiser H. (2020). Graphical Presentations of Clinical Data in a Learning Electronic Medical Record. Applied clinical informatics, 11(4)

Warner JL, Dymshyts D, Reich CG, Gurley MJ, Hochheiser H, Moldwin ZH, Belenkaya R, Williams AE, Yang PC. (2019). HemOnc: A new standard vocabulary for chemotherapy regimen representation in the OMOP common data model. Journal of biomedical informatics, (96)

Trivedi G, Hong C, Dadashzadeh ER, Handzel RM, Hochheiser H, Visweswaran S. (2019). Identifying incidental findings from radiology reports of trauma patients: An evaluation of automated feature representation methods. International journal of medical informatics, (129)

Grizzle AJ, Hines LE, Malone DC, Kravchenko O, Hochheiser H, Boyce RD. (2020). Testing the face validity and inter-rater agreement of a simple approach to drug-drug interaction evidence assessment. Journal of biomedical informatics, (101)

Schnetz MP, Hochheiser HS, Danks DJ, Landsittel DP, Vogt KM, Ibinson JW, Whitehurst SL, McDermott SP, Duque MG, Kaynar AM. (2019). The triple variable index combines information generated over time from common monitoring variables to identify patients expressing distinct patterns of intraoperative physiology. BMC medical research methodology, 19(1)

Wu DTY, Chen AT, Manning JD, Levy-Fix G, Backonja U, Borland D, Caban JJ, Dowding DW, Hochheiser H, Kagan V, Kandaswamy S, Kumar M, Nunez A, Pan E, Gotz D. (2019). Evaluating visual analytics for health informatics applications: a systematic review from the American Medical Informatics Association Visual Analytics Working Group Task Force on Evaluation. Journal of the American Medical Informatics Association : JAMIA, 26(4)

King AJ, Cooper GF, Clermont G, Hochheiser H, Hauskrecht M, Sittig DF, Visweswaran S. (2019). Using machine learning to selectively highlight patient information. Journal of biomedical informatics, (100)

Cai C, Cooper GF, Lu KN, Ma X, Xu S, Zhao Z, Chen X, Xue Y, Lee AV, Clark N, Chen V, Lu S, Chen L, Yu L, Hochheiser HS, Jiang X, Wang QJ, Lu X. (2019). Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. PLoS computational biology, 15(7)

Trivedi G, Dadashzadeh ER, Handzel RM, Chapman WW, Visweswaran S, Hochheiser H. (2019). Interactive NLP in Clinical Care: Identifying Incidental Findings in Radiology Reports. Applied clinical informatics, 10(4)

Ogoe HA, Asamani JA, Hochheiser H, Douglas GP. (2018). Assessing Ghana's eHealth workforce: implications for planning and training. Human resources for health, 16(1)

King AJ, Cooper GF, Hochheiser H, Clermont G, Hauskrecht M, Visweswaran S. (2018). Using Machine Learning to Predict the Information Seeking Behavior of Clinicians Using an Electronic Medical Record System. AMIA ... Annual Symposium proceedings. AMIA Symposium, (2018)

Markam H, Hochheiser H, Kuntoro K, Notobroto HB. (2018). Exploring Midwives' Need and Intention to Adopt Electronic Integrated Antenatal Care. Perspectives in health information management, 15(Winter)

King AJ, Hochheiser H, Visweswaran S, Clermont G, Cooper GF. (2017). Eye-tracking for clinical decision support: A method to capture automatically what physicians are viewing in the EMR. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, (2017)

Calvitti A, Hochheiser H, Ashfaq S, Bell K, Chen Y, El Kareh R, Gabuzda MT, Liu L, Mortensen S, Pandey B, Rick S, Street RL Jr., Weibel N, Weir C, Agha Z. (2017). Physician activity during outpatient visits and subjective workload. Journal of biomedical informatics, (69)

Romagnoli KM, Nelson SD, Hines L, Empey P, Boyce RD, Hochheiser H. (2017). Information needs for making clinical recommendations about potential drug-drug interactions: a synthesis of literature review and interviews. BMC medical informatics and decision making, 17(1)

Trivedi G, Pham P, Chapman WW, Hwa R, Wiebe J, Hochheiser H. (2018). NLPReViz: an interactive tool for natural language processing on clinical text. Journal of the American Medical Informatics Association : JAMIA, 25(1)

Savova GK, Tseytlin E, Finan S, Castine M, Miller T, Medvedeva O, Harris D, Hochheiser H, Lin C, Chavan G, Jacobson RS. (2017). DeepPhe: A Natural Language Processing System for Extracting Cancer Phenotypes from Clinical Records. Cancer research, 77(21)

Smedley D, Schubach M, Jacobsen JOB, Köhler S, Zemojtel T, Spielmann M, Jäger M, Hochheiser H, Washington NL, McMurry JA, Haendel MA, Mungall CJ, Lewis SE, Groza T, Valentini G, Robinson PN. (2016). A Whole-Genome Analysis Framework for Effective Identification of Pathogenic Regulatory Variants in Mendelian Disease. American journal of human genetics, 99(3)

Stein CD, Xiao X, Levine S, Schleyer TK, Hochheiser H, Thyvalikakath TP. (2016). A prototype mobile application for triaging dental emergencies. Journal of the American Dental Association (1939), 147(10)

Hochheiser H, Castine M, Harris D, Savova G, Jacobson RS. (2016). An information model for computable cancer phenotypes. BMC medical informatics and decision making, 16(1)

Links AE, Draper D, Lee E, Guzman J, Valivullah Z, Maduro V, Lebedev V, Didenko M, Tomlin G, Brudno M, Girdea M, Dumitriu S, Haendel MA, Mungall CJ, Smedley D, Hochheiser H, Arnold AM, Coessens B, Verhoeven S, Bone W, Adams D, Boerkoel CF, Gahl WA, Sincan M. (2016). Distributed Cognition and Process Management Enabling Individualized Translational Research: The NIH Undiagnosed Diseases Program Experience. Frontiers in medicine, (3)

Romagnoli KM, Boyce RD, Empey PE, Adams S, Hochheiser H. (2016). Bringing clinical pharmacogenomics information to pharmacists: A qualitative study of information needs and resource requirements. International journal of medical informatics, (86)

Mungall CJ, McMurry JA, Köhler S, Balhoff JP, Borromeo C, Brush M, Carbon S, Conlin T, Dunn N, Engelstad M, Foster E, Gourdine JP, Jacobsen JO, Keith D, Laraway B, Lewis SE, NguyenXuan J, Shefchek K, Vasilevsky N, Yuan Z, Washington N, Hochheiser H, Groza T, Smedley D, Robinson PN, Haendel MA. (2017). The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species. Nucleic acids research, 45(D1)

McMurry JA, Köhler S, Washington NL, Balhoff JP, Borromeo C, Brush M, Carbon S, Conlin T, Dunn N, Engelstad M, Foster E, Gourdine JP, Jacobsen JO, Keith D, Laraway B, Xuan JN, Shefchek K, Vasilevsky NA, Yuan Z, Lewis SE, Hochheiser H, Groza T, Smedley D, Robinson PN, Mungall CJ, Haendel MA. (2016). Navigating the Phenotype Frontier: The Monarch Initiative. Genetics, 203(4)

Haendel MA, Vasilevsky N, Brush M, Hochheiser HS, Jacobsen J, Oellrich A, Mungall CJ, Washington N, Köhler S, Lewis SE, Robinson PN, Smedley D. (2015). Disease insights through cross-species phenotype comparisons. Mammalian genome : official journal of the International Mammalian Genome Society, 26(9-10)

Landis-Lewis Z, Brehaut JC, Hochheiser H, Douglas GP, Jacobson RS. (2015). Computer-supported feedback message tailoring: theory-informed adaptation of clinical audit and feedback for learning and behavior change. Implementation science : IS, (10)

Strange C, Senior RM, Sciurba F, O'Neal S, Morris A, Wisniewski SR, Bowler R, Hochheiser HS, Becich MJ, Zhang Y, Leader JK, Methé BA, Kaminski N, Sandhaus RA, . (2015). Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis Study. Alpha-1 Protocol. Annals of the American Thoracic Society, 12(10)

Mungall CJ, Washington NL, Nguyen-Xuan J, Condit C, Smedley D, Köhler S, Groza T, Shefchek K, Hochheiser H, Robinson PN, Lewis SE, Haendel MA. (2015). Use of model organism and disease databases to support matchmaking for human disease gene discovery. Human mutation, 36(10)

King AJ, Cooper GF, Hochheiser H, Clermont G, Visweswaran S. (2015). Development and Preliminary Evaluation of a Prototype of a Learning Electronic Medical Record System. AMIA ... Annual Symposium proceedings. AMIA Symposium, (2015)

Ligons FM, Mello-Thoms C, Handler SM, Romagnoli KM, Hochheiser H. (2014). Assessing the impact of cognitive impairment on the usability of an electronic medication delivery unit in an assisted living population. International journal of medical informatics, 83(11)

Ayvaz S, Zhu Q, Hochheiser H, Brochhausen M, Horn J, Dumontier M, Samwald M, Boyce RD. (2014). Drug-drug interaction data source survey and linking. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science, (2014)

Hochheiser H, Aronow BJ, Artinger K, Beaty TH, Brinkley JF, Chai Y, Clouthier D, Cunningham ML, Dixon M, Donahue LR, Fraser SE, Hallgrimsson B, Iwata J, Klein O, Marazita ML, Murray JC, Murray S, de Villena FP, Postlethwait J, Potter S, Shapiro L, Spritz R, Visel A, Weinberg SM, Trainor PA. (2011). The FaceBase Consortium: a comprehensive program to facilitate craniofacial research. Developmental biology, 355(2)

Hochheiser H, Yanowitz J. (2007). If I only had a brain: exploring mouse brain images in the Allen Brain Atlas. Biology of the cell, 99(7)

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